# List of top-scoring protein chains for t04-100-30-str2 hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1ihgA 370 1.03e-01 2cpl a.118.8.1 62380 b.62.1.1 62381 1t7pA 698 1.41e-01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1flcB 175 4.53e-01 1flcB h.3.1.1 45716 1pq1A 196 1.02e+00 f.1.4.1 -12055 1h0hA 977 1.38e+00 b.52.2.2 76435 c.81.1.1 76436 1in6A 334 1.89e+00 1hqcA a.4.5.11 62601 c.37.1.20 62602 1l8nA 679 2.00e+00 c.1.8.10 84564 d.92.2.2 84565 1q4mA 221 2.09e+00 unknown_sccs -1910 1in4A 334 2.32e+00 1hqcA a.4.5.11 62597 c.37.1.20 62598 1czaN 917 2.43e+00 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1byb 495 2.68e+00 1byb c.1.8.1 28790 1h5wA 309 3.10e+00 e.27.1.1 65635 1ca1 370 3.40e+00 1ca1 a.124.1.1 19340 b.12.1.3 23648 1itcA 516 3.65e+00 b.3.1.1 83705 c.1.8.1 83706 1lngA 87 3.75e+00 d.201.1.1 74045 1pieA 419 4.18e+00 d.14.1.5 -9075 unknown_sccs -10120 1q1aA 289 4.37e+00 c.31.1.5 -6781 1uhnA 189 4.63e+00 a.39.1.5 -853 1fjgB 256 4.67e+00 1fjfB c.23.15.1 31400 1dxrL 273 4.86e+00 6prcL f.26.1.1 43431 1k8tA 510 5.09e+00 e.41.1.1 68316 1nrfA 262 5.48e+00 e.3.1.1 -11780 1i1rB 181 5.90e+00 1i1rB a.26.1.1 61548 1mhqA 148 5.92e+00 a.118.9.2 84973 1q6cA 495 6.01e+00 c.1.8.1 -5300 1v3hA 495 6.74e+00 1qtrA 317 6.76e+00 1qtrA c.69.1.7 34660 1miwA 404 6.77e+00 a.173.1.1 79162 d.218.1.4 79163 1ijgA 309 7.11e+00 1fouA e.27.1.1 62493 1ufbA 127 7.65e+00 a.24.16.3 -635 1ng6A 148 7.79e+00 a.182.1.1 85670 1kgnA 329 8.79e+00 a.25.1.2 68584 1cg5A 141 8.82e+00 1abwA a.1.1.2 15406 1alu 186 8.87e+00 1alu a.26.1.1 16826 1khdA 345 8.99e+00 a.46.2.1 77400 c.27.1.1 77401 1ux5A 411 9.28e+00 unknown_sccs -1768 1hx0A 496 9.40e+00 b.71.1.1 61346 c.1.8.1 61347 2bidA 197 9.44e+00 2bidA f.1.4.1 43398 2myr 501 9.54e+00 1eg5A 384 9.72e+00 1ecxA c.67.1.3 34429 1fobA 334 9.95e+00 c.1.8.3 83255 1hnjA 317 1.05e+01 1hn9A c.95.1.1 35969 c.95.1.1 35970 1nzoA 363 1.06e+01 b.105.1.1 -2933 e.3.1.1 -11784 1ezwA 349 1.09e+01 1ezwA c.1.16.3 29558 1h21A 247 1.10e+01 a.138.1.3 76510 3gcb 470 1.19e+01 3gcb d.3.1.1 37032 1hm6A 346 1.19e+01 1avc a.65.1.1 18147 1fnnA 389 1.20e+01 1fnnA a.4.5.11 16129 c.37.1.20 32426 1s5lA 344 1.21e+01 1gcb 454 1.22e+01 3gcb d.3.1.1 37034 1v02A 565 1.23e+01 1furA 467 1.23e+01 1furA a.127.1.1 19403 1t5jA 313 1.31e+01 unknown_sccs -1951 1top 162 1.32e+01 1ncx a.39.1.5 17223 1dvpA 220 1.33e+01 1dvpA a.118.9.2 19216 g.50.1.1 45358 1lox 662 1.34e+01 1lox a.119.1.2 19238 b.12.1.1 23638 1hfeL 421 1.35e+01 1fehA c.96.1.1 36018 d.58.1.5 39001 1pwmA 316 1.37e+01 c.1.7.1 -5232 1hu3A 260 1.51e+01 1hu3A unknown_sccs 19137 1ads 315 1.51e+01 1frb c.1.7.1 28671 1ju2A 536 1.55e+01 c.3.1.2 77169 d.16.1.1 77170 1lshA 1056 1.56e+01 a.118.4.1 74242 f.7.1.1 74243 f.7.1.1 74244 1ua4A 455 1.57e+01 c.72.1.3 -8416 1k47A 337 1.57e+01 d.14.1.5 72040 d.58.26.4 72041 1csh 435 1.59e+01 1csh a.103.1.1 18880 1e4mM 501 1.59e+01 1e70M c.1.8.4 59226 1qcwA 410 1.66e+01 1gox c.1.4.1 28622 1thg 544 1.66e+01 1thg c.69.1.17 34763 1ub9A 100 1.67e+01 a.4.5.28 -231 1qv1A 195 1.68e+01 a.39.1.5 -830 1c7gA 456 1.70e+01 c.67.1.2 -8153 1ujkA 147 1.70e+01 a.118.9.2 -1623 1jwgA 147 1.70e+01 a.118.9.2 71911 1us0A 316 1.71e+01 c.1.7.1 -5233 1ngkA 128 1.72e+01 a.1.1.1 85673 1jdc 429 1.73e+01 1jdc b.71.1.1 27789 c.1.8.1 28776 1kbjA 412 1.74e+01 c.1.4.1 72280 1rwtA 232 1.75e+01 unknown_sccs -12345 1qsdA 106 1.85e+01 1qsdA a.7.5.1 16335 1n7oA 721 1.85e+01 a.102.3.2 80259 b.24.1.1 80260 b.30.5.2 80261 1kyhA 276 1.86e+01 c.72.1.4 73222 2gdm 153 1.92e+01 2gdm a.1.1.2 15212 1gcyA 527 1.94e+01 1jdc b.71.1.1 27788 c.1.8.1 28775 1rx0A 393 1.95e+01 a.29.3.1 -742 e.6.1.1 -11858 1a6m 151 2.07e+01 1a6m a.1.1.2 15018 1cjaA 342 2.10e+01 1cjaA d.144.1.3 41708 1gypA 358 2.11e+01 1dssG c.2.1.3 30004 d.81.1.1 39919 1kyqA 274 2.13e+01 c.2.1.11 73281 e.37.1.1 73282 1f7uA 607 2.15e+01 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 1upkA 341 2.19e+01 unknown_sccs -1565 1nogA 177 2.27e+01 a.25.2.2 85923 1jk3A 158 2.27e+01 d.92.1.11 66790 1mmq 170 2.28e+01 1hfc d.92.1.11 40396 1el4A 195 2.29e+01 1ej3A a.39.1.5 59453 1nhyA 219 2.29e+01 a.45.1.1 80520 c.47.1.5 80521 1iqrA 420 2.31e+01 a.99.1.1 66275 c.28.1.1 66276 1bouB 302 2.33e+01 1bouB c.56.6.1 33859 1qqqA 264 2.34e+01 1bkpA d.117.1.1 40931 1mhyB 395 2.35e+01 1mtyB a.25.1.2 16781 1evsA 187 2.45e+01 1evsA a.26.1.1 16845 1ohuA 175 2.45e+01 f.1.4.1 -12058 1o3uA 135 2.46e+01 a.24.16.3 86615 1ekeA 230 2.49e+01 1ekeA c.55.3.1 33572 1af3 196 2.54e+01 1maz f.1.4.1 43397 1eguA 731 2.58e+01 1eguA a.102.3.2 18850 b.24.1.1 23899 b.30.5.2 24423 1r9lA 309 2.58e+01 c.94.1.1 -8700 1maz 221 2.66e+01 1maz f.1.4.1 43393 1qazA 351 2.68e+01 1qazA a.102.3.1 18848 1qyiA 384 2.69e+01 unknown_sccs -6836 1nd7A 374 2.74e+01 d.148.1.1 -11394 1mr3F 181 2.77e+01 c.37.1.8 79422 1sglA 209 2.80e+01 1ohvA 472 2.87e+01 c.67.1.4 -8181 1ntyA 311 2.88e+01 1fqiA 147 2.89e+01 1agrE a.91.1.1 18542 1smd 496 2.92e+01 1smd b.71.1.1 27768 c.1.8.1 28755 1mtzA 293 2.97e+01 c.69.1.7 79467 2ilk 160 2.97e+01 2ilk a.26.1.3 16885 1oxjA 173 3.00e+01 a.60.1.2 87517 a.118.1.13 87518 1avaA 403 3.12e+01 1jdc b.71.1.1 27797 c.1.8.1 28784 1euvA 221 3.14e+01 1euvA d.3.1.7 37133 3ertA 261 3.21e+01 3erdA a.123.1.1 19292 1v92A 46 3.25e+01 a.5.2.3 -357 1lrzA 426 3.28e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1oc2A 348 3.32e+01 c.2.1.2 -5753 1mg7A 417 3.34e+01 d.14.1.6 84954 d.58.26.6 84955 1rktA 205 3.39e+01 a.4.1.9 -210 a.121.1.1 -1663 1q5zA 177 3.44e+01 unknown_sccs -1215 1fsu 492 3.45e+01 1auk c.76.1.2 35032 1kepA 348 3.47e+01 c.2.1.2 68536 1gx4A 289 3.49e+01 c.68.1.9 83362 1o7qA 289 3.53e+01 c.68.1.9 -8216 1v93A 296 3.56e+01 c.1.23.1 -5654 1r3cA 366 3.57e+01 d.144.1.7 -11296 7aatA 401 3.61e+01 1ajsA c.67.1.1 34250 1r6fA 310 3.65e+01 unknown_sccs -11804 1jf2A 195 3.69e+01 1ej3A a.39.1.5 62930 1d8dA 377 3.70e+01 1ft1A a.118.6.1 19185 1evfA 264 3.72e+01 1bkpA d.117.1.1 40932 1amy 403 3.77e+01 1jdc b.71.1.1 27799 c.1.8.1 28786 1ks8A 433 3.78e+01 a.102.1.2 77519 1fjgT 106 3.81e+01 1fjfT a.7.6.1 16338 1rdr 461 3.89e+01 1rdr e.8.1.4 43116 1f7cA 231 3.95e+01 1f7cA a.116.1.1 19107 1auiB 169 3.97e+01 1auiB a.39.1.5 17325 1qlwA 328 3.99e+01 1qlwA c.69.1.15 34722